RegulonDB RegulonDB 11.1: Operon Form
   

cysDNC operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: cysDNC
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit          
Name: cysDNC
Synonym(s): cysD, cysNC
Gene(s): cysC, cysN, cysD   Genome Browser M3D Gene expression COLOMBOS
Note(s): Originally, there were two operons, cysNC and cysD, described. In Leyh TS,1988, it was demonstrated that cysN and cysC were both contained in one operon. The evidence was the strong polarity between cysN and cysC, although no promoter was described. It was not determined whether the upstream gene (cysD) was part of the same operon, but the authors suggested that all the genes could be transcribed because their products are part of the same metabolic pathway. In a more recent paper, Malo MS,1990, a promoter upstream of cysD was described. In a third reference, Leyh TS,1992, it is proposed that the three genes are translationally coupled, confirming that they reside within the same operon. Additionally, a terminator of transcription has also been identified.
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
[EXP-IEP] Inferred from expression pattern
[EXP-IEP-COREGULATION] Inferred through co-regulation
[EXP-IMP-POLAR-MUTATION] Polar mutation
Reference(s): [1] Leyh TS., et al., 1988
[2] Leyh TS., et al., 1992
[3] Malo MS., et al., 1990
Promoter
Name: cysDp
+1: 2876368
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 39
Sequence: aactactcattctaattggtaatttcattcgttctcttacgctccctatagtcgaaacatCtgatggcaagaaaatagcgg
                             -35                    -10     +1                   
Evidence: [COMP-AINF]
[COMP-HINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [4] Huerta AM., et al., 2003
[3] Malo MS., et al., 1990
Terminator(s)
Type: rho-independent
Sequence: cgcaaataacCAGGAGATAAAACCGACCACGGCACCAGGCAGTGACCATGTGGTTTCTTCAtcctcagtaa
Reference(s): [2] Leyh TS., et al., 1992
TF binding sites (TFBSs)
[CysB,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CysB-O-acetyl-L-serine activator cysDp 2876432 2876473 -85.0 cggtgccttaAGCACTTTTTGATATTAGCTTTGCCAAATCGTTATTCCGTTAaggaactact nd [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS] nd nd


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [COMP-HINF] Inferred by a human based on computational evidence

 [COMP-HINF-POSITIONAL-IDENTIFICATION] Human inference of promoter position

 [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] Transcription initiation mapping

 [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS] Binding of cellular extracts


Reference(s)    

 [1] Leyh TS., Taylor JC., Markham GD., 1988, The sulfate activation locus of Escherichia coli K12: cloning, genetic, and enzymatic characterization., J Biol Chem 263(5):2409-16

 [2] Leyh TS., Vogt TF., Suo Y., 1992, The DNA sequence of the sulfate activation locus from Escherichia coli K-12., J Biol Chem 267(15):10405-10

 [3] Malo MS., Loughlin RE., 1990, Promoter elements and regulation of expression of the cysD gene of Escherichia coli K-12., Gene 87(1):127-31

 [4] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

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